Literature DB >> 29081538

Mean First-Passage Times in Biology.

Nicholas F Polizzi1, Michael J Therien2, David N Beratan1,2,3.   

Abstract

Many biochemical processes, such as charge hopping or protein folding, can be described by an average timescale to reach a final state, starting from an initial state. Here, we provide a pedagogical treatment of the mean first-passage time (MFPT) of a physical process, which depends on the number of intervening states between the initial state and the target state. Our aim in this tutorial review is to provide a clear development of the mean first-passage time formalism and to show some of its practical utility. The MFPT treatment can provide a useful link between microscopic rates and the average timescales often probed by experiment.

Entities:  

Keywords:  Markov chains; electron transfer; mean first-passage time; protein folding

Year:  2016        PMID: 29081538      PMCID: PMC5656268          DOI: 10.1002/ijch.201600040

Source DB:  PubMed          Journal:  Isr J Chem        ISSN: 0021-2148            Impact factor:   3.333


  19 in total

1.  Charge hopping in DNA.

Authors:  Y A Berlin; A L Burin; M A Ratner
Journal:  J Am Chem Soc       Date:  2001-01-17       Impact factor: 15.419

Review 2.  What are the dielectric "constants" of proteins and how to validate electrostatic models?

Authors:  C N Schutz; A Warshel
Journal:  Proteins       Date:  2001-09-01

Review 3.  Electron tunneling through proteins.

Authors:  Harry B Gray; Jay R Winkler
Journal:  Q Rev Biophys       Date:  2003-08       Impact factor: 5.318

4.  Defusing redox bombs?

Authors:  Nicholas F Polizzi; Agostino Migliore; Michael J Therien; David N Beratan
Journal:  Proc Natl Acad Sci U S A       Date:  2015-08-19       Impact factor: 11.205

5.  First-passage times in complex scale-invariant media.

Authors:  S Condamin; O Bénichou; V Tejedor; R Voituriez; J Klafter
Journal:  Nature       Date:  2007-11-01       Impact factor: 49.962

Review 6.  Electron transfer mechanisms.

Authors:  D Beratan; S Skourtis
Journal:  Curr Opin Chem Biol       Date:  1998-04       Impact factor: 8.822

7.  Physical constraints on charge transport through bacterial nanowires.

Authors:  Nicholas F Polizzi; Spiros S Skourtis; David N Beratan
Journal:  Faraday Discuss       Date:  2012       Impact factor: 4.008

8.  Simple model of protein folding kinetics.

Authors:  R Zwanzig
Journal:  Proc Natl Acad Sci U S A       Date:  1995-10-10       Impact factor: 11.205

9.  Hole hopping through tyrosine/tryptophan chains protects proteins from oxidative damage.

Authors:  Harry B Gray; Jay R Winkler
Journal:  Proc Natl Acad Sci U S A       Date:  2015-07-20       Impact factor: 11.205

10.  Nucleic Acid Charge Transfer: Black, White and Gray.

Authors:  Ravindra Venkatramani; Shahar Keinan; Alexander Balaeff; David N Beratan
Journal:  Coord Chem Rev       Date:  2011-04-01       Impact factor: 22.315

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Journal:  ACS Omega       Date:  2022-08-24

7.  Rapid kinetic fingerprinting of single nucleic acid molecules by a FRET-based dynamic nanosensor.

Authors:  Kunal Khanna; Shankar Mandal; Aaron T Blanchard; Muneesh Tewari; Alexander Johnson-Buck; Nils G Walter
Journal:  Biosens Bioelectron       Date:  2021-06-16       Impact factor: 12.545

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Journal:  Int J Mol Sci       Date:  2020-01-16       Impact factor: 5.923

9.  Electrostatic influence on IL-1 transport through the GSDMD pore.

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Journal:  Proc Natl Acad Sci U S A       Date:  2022-02-08       Impact factor: 12.779

  9 in total

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